Re: Ok, my turn to ask for medical\"ish\" advice...
No experience with the soreness, etc, but the coffee and sleep/stomach issues are very familiar to me. I am lactose intolerant and have IBS and my stomach/digestive system was absolutely crazy before I finally addressed my issues. Coffee was the worst offender, but dairy and alcohol are very harsh on the tract as well. Drink lots of water (not ice-cold, room temperature is much better), quit coffee (even decaf, because it's not the caffeine), and limit dairy and alcohol. Helped me a lot.
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